Name: Chryseobacterium taklimakanense X-65
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133475

Type strain:

Species: Chryseobacterium taklimakanense

Strain Designation: X-65

Culture col. no.: CCTCC AB 208154, NRRL B-51322, CCUG 68730, NCTC 13490

NCBI tax ID(s): 536441 (species)

SI-ID 409265

CCUG 68730

Other strains from Chryseobacterium taklimakanense

C. taklimakanense CCUG 60561, NCTC 13527
C. taklimakanense CCUG 69025

Section

Chryseobacterium taklimakanense X-65 is a facultative anaerobe, Gram-negative, motile bacterium that was isolated from soil.

Gram-negative
motile
rod-shaped
facultative anaerobe
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Weeksellaceae*
	Genus	*Chryseobacterium*
	Species	**Chryseobacterium taklimakanense**
	Full Scientific Name (LPSN)	Chryseobacterium taklimakanense (Peng et al. 2009) Holmes et al. 2013

Synonym

Planobacterium taklimakanense

Information on morphological and physiological properties Morphology

[Ref.: #29115]	Gram stain	negative

[Ref.: #29115]	Cell length	1.25 µm

[Ref.: #29115]	Cell width	0.5 µm

[Ref.: #29115]	Cell shape	rod-shaped

[Ref.: #29115]	Motility	yes

[Ref.: #29115]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #29115]	growth	18-37 °C
[Ref.: #29115]	optimum	30 °C
[Ref.: #63519]	growth	30 °C

[Ref.: #29115]	Temperature range	mesophilic
[Ref.: #63519]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #29115]			optimum	7.5
[Ref.: #29115]			growth	06-12

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29115]	Oxygen tolerance	facultative anaerobe
[Ref.: #63519]	Oxygen tolerance	aerobe

[Ref.: #29115]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29115]		NaCl		growth	0-3	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29115]	3-hydroxybutyrate ChEBI	+	carbon source
[Ref.: #29115]	alanine ChEBI	+	carbon source
[Ref.: #29115]	arabinose ChEBI	+	carbon source
[Ref.: #29115]	asparagine ChEBI	+	carbon source
[Ref.: #29115]	aspartate ChEBI	+	carbon source
[Ref.: #29115]	cellobiose ChEBI	+	carbon source
[Ref.: #29115]	dextrin ChEBI	+	carbon source
[Ref.: #29115]	esculin ChEBI	+	hydrolysis
[Ref.: #29115]	gluconate ChEBI	+	carbon source
[Ref.: #29115]	glucose ChEBI	+	carbon source
[Ref.: #29115]	glutamate ChEBI	+	carbon source
[Ref.: #29115]	glycogen ChEBI	+	carbon source
[Ref.: #29115]	inosine ChEBI	+	carbon source
[Ref.: #29115]	L-alaninamide ChEBI	+	carbon source
[Ref.: #29115]	lactate ChEBI	+	carbon source
[Ref.: #29115]	leucine ChEBI	+	carbon source
[Ref.: #29115]	maltose ChEBI	+	carbon source
[Ref.: #29115]	mannose ChEBI	+	carbon source
[Ref.: #29115]	melibiose ChEBI	+	carbon source
[Ref.: #29115]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #29115]	ornithine ChEBI	+	carbon source
[Ref.: #29115]	proline ChEBI	+	carbon source
[Ref.: #29115]	serine ChEBI	+	carbon source
[Ref.: #29115]	sorbitol ChEBI	+	carbon source
[Ref.: #29115]	threonine ChEBI	+	carbon source
[Ref.: #29115]	trehalose ChEBI	+	carbon source
[Ref.: #29115]	uridine ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #29115]		indole ChEBI	yes

	Physiological tests	Metabolite	Indole test
[Ref.: #29115]		indole ChEBI	+

	Enzyme	Enzyme activity	EC number
[Ref.: #29115]	acid phosphatase	+	3.1.3.2
[Ref.: #29115]	alkaline phosphatase	+	3.1.3.1
[Ref.: #29115]	catalase	+	1.11.1.6
[Ref.: #29115]	cytochrome oxidase	+	1.9.3.1

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	glycogen metabolism	100	5 of 5
[Ref.: #66794]	phenylacetate degradation (aerobic)	100	5 of 5
[Ref.: #66794]	vitamin K metabolism	100	5 of 5
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	teichoic acid biosynthesis	100	1 of 1
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	palmitate biosynthesis	95.45	21 of 22
[Ref.: #66794]	starch degradation	90	9 of 10
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	gluconeogenesis	87.5	7 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	photosynthesis	85.71	12 of 14
[Ref.: #66794]	tetrahydrofolate metabolism	85.71	12 of 14
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	propionate fermentation	80	8 of 10
[Ref.: #66794]	glycine betaine biosynthesis	80	4 of 5
[Ref.: #66794]	glutamate and glutamine metabolism	78.57	22 of 28
[Ref.: #66794]	heme metabolism	78.57	11 of 14
[Ref.: #66794]	NAD metabolism	77.78	14 of 18
[Ref.: #66794]	aspartate and asparagine metabolism	77.78	7 of 9
[Ref.: #66794]	CO2 fixation in Crenarchaeota	77.78	7 of 9
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	purine metabolism	72.34	68 of 94
[Ref.: #66794]	reductive acetyl coenzyme A pathway	71.43	5 of 7
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	citric acid cycle	71.43	10 of 14
[Ref.: #66794]	propanol degradation	71.43	5 of 7
[Ref.: #66794]	ubiquinone biosynthesis	71.43	5 of 7
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	flavin biosynthesis	66.67	10 of 15
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	serine metabolism	66.67	6 of 9
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	pyrimidine metabolism	66.67	30 of 45
[Ref.: #66794]	methionine metabolism	65.38	17 of 26
[Ref.: #66794]	tyrosine metabolism	64.29	9 of 14
[Ref.: #66794]	dTDPLrhamnose biosynthesis	62.5	5 of 8
[Ref.: #66794]	phenylalanine metabolism	61.54	8 of 13
[Ref.: #66794]	cysteine metabolism	61.11	11 of 18
[Ref.: #66794]	threonine metabolism	60	6 of 10
[Ref.: #66794]	cellulose degradation	60	3 of 5
[Ref.: #66794]	methylglyoxal degradation	60	3 of 5
[Ref.: #66794]	lysine metabolism	59.52	25 of 42
[Ref.: #66794]	glycolysis	58.82	10 of 17
[Ref.: #66794]	non-pathway related	57.89	22 of 38
[Ref.: #66794]	glutathione metabolism	57.14	8 of 14
[Ref.: #66794]	alanine metabolism	55.17	16 of 29
[Ref.: #66794]	lipid metabolism	54.84	17 of 31
[Ref.: #66794]	pentose phosphate pathway	54.55	6 of 11
[Ref.: #66794]	vitamin B1 metabolism	53.85	7 of 13
[Ref.: #66794]	leucine metabolism	53.85	7 of 13
[Ref.: #66794]	tryptophan metabolism	52.63	20 of 38
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	biotin biosynthesis	50	2 of 4
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	selenocysteine biosynthesis	50	3 of 6
[Ref.: #66794]	isoleucine metabolism	50	4 of 8
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	ketogluconate metabolism	50	4 of 8
[Ref.: #66794]	isoprenoid biosynthesis	46.15	12 of 26
[Ref.: #66794]	phenylpropanoid biosynthesis	46.15	6 of 13
[Ref.: #66794]	vitamin B6 metabolism	45.45	5 of 11
[Ref.: #66794]	proline metabolism	45.45	5 of 11
[Ref.: #66794]	oxidative phosphorylation	41.76	38 of 91
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	histidine metabolism	41.38	12 of 29
[Ref.: #66794]	carotenoid biosynthesis	40.91	9 of 22
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	3-chlorocatechol degradation	40	2 of 5
[Ref.: #66794]	coenzyme M biosynthesis	40	4 of 10
[Ref.: #66794]	gallate degradation	40	2 of 5
[Ref.: #66794]	Entner Doudoroff pathway	40	4 of 10
[Ref.: #66794]	metabolism of amino sugars and derivatives	40	2 of 5
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	degradation of pentoses	35.71	10 of 28
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	glycolate and glyoxylate degradation	33.33	2 of 6
[Ref.: #66794]	arachidonic acid metabolism	33.33	6 of 18
[Ref.: #66794]	pantothenate biosynthesis	33.33	2 of 6
[Ref.: #66794]	valine metabolism	33.33	3 of 9
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	octane oxidation	33.33	1 of 3
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	ascorbate metabolism	31.82	7 of 22
[Ref.: #66794]	androgen and estrogen metabolism	31.25	5 of 16
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	30.77	4 of 13
[Ref.: #66794]	urea cycle	30.77	4 of 13
[Ref.: #66794]	sulfate reduction	30.77	4 of 13
[Ref.: #66794]	glycine metabolism	30	3 of 10
[Ref.: #66794]	arginine metabolism	29.17	7 of 24
[Ref.: #66794]	mevalonate metabolism	28.57	2 of 7
[Ref.: #66794]	degradation of hexoses	27.78	5 of 18
[Ref.: #66794]	d-xylose degradation	27.27	3 of 11
[Ref.: #66794]	cholesterol biosynthesis	27.27	3 of 11
[Ref.: #66794]	metabolism of disaccharids	27.27	3 of 11
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	polyamine pathway	21.74	5 of 23
		Only first 10 entries are displayed. Click here to see all.

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #29115]	Sample type/isolated from	soil

[Ref.: #63519]	Sample type/isolated from	Desert soil
[Ref.: #63519]	Sampling date	2009
[Ref.: #63519]	Country	China
[Ref.: #63519]	Country ISO 3 Code	CHN
[Ref.: #63519]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence EU718058 (>99% sequence identity) for Chryseobacterium taklimakanense subclade from Microbeatlas

Aquatic Samples	1299
Soil Samples	672
Animal Samples	5698
Plant Samples	145
Total Samples	7814

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #29115]	Planobacterium taklimakanense strain X-65 16S ribosomal RNA gene, partial sequence	EU718058	1391	GenBank	536441 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Chryseobacterium taklimakanense NCTC13490	GCA_900187185	complete	GenBank	536441 tax ID	*
[Ref.: #66792]	Chryseobacterium taklimakanense strain NCTC13490	536441.3	complete	PATRIC	536441 tax ID	*
[Ref.: #66792]	Chryseobacterium taklimakanense NCTC 13490	2765235860	complete	JGI IMG/M	536441 tax ID	*

[Ref.: #29115]

GC-content

41.5 mol%

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Chryseobacterium taklimakanense NCTC13490 NCBI: GCA_900187185.1
[Ref.: #69480]	motile	no	88.671	yes
[Ref.: #69480]	flagellated	no	96.556	no
[Ref.: #69480]	gram-positive	no	98.495	yes
[Ref.: #69480]	anaerobic	no	98.565	yes
[Ref.: #69480]	aerobic	yes	81.624	no
[Ref.: #69480]	halophile	no	95.364	no
[Ref.: #69480]	spore-forming	no	96.529	yes
[Ref.: #69480]	thermophile	no	98.298	no
[Ref.: #69480]	glucose-util	yes	82.275	yes
[Ref.: #69480]	glucose-ferment	no	93.719	no

Availability in culture collections External links

[Ref.: #29115]

Culture collection no.

CCTCC AB 208154, NRRL B-51322, CCUG 68730, NCTC 13490

[Ref.: #91457]

SI-ID 409265

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Planobacterium taklimakanense gen. nov., sp. nov., a member of the family Flavobacteriaceae that exhibits swimming motility, isolated from desert soil.	Peng F, Liu M, Zhang L, Dai J, Luo X, An H, Fang C	Int J Syst Evol Microbiol	10.1099/ijs.0.006619-0	2009	*
Phylogeny	Chryseobacterium frigidum sp. nov., isolated from high-Arctic tundra soil, and emended descriptions of Chryseobacterium bernardetii and Chryseobacterium taklimakanense.	Kim T, Kim M, Kang O, Jiang F, Chang X, Liu P, Zhang Y, Da X, Zheng C, Fang C, Peng F	Int J Syst Evol Microbiol	10.1099/ijsem.0.000761	2015	*
Phylogeny	DNA-DNA hybridization study of strains of Chryseobacterium, Elizabethkingia and Empedobacter and of other usually indole-producing non-fermenters of CDC groups IIc, IIe, IIh and IIi, mostly from human clinical sources, and proposals of Chryseobacterium bernardetii sp. nov., Chryseobacterium carnis sp. nov., Chryseobacterium lactis sp. nov., Chryseobacterium nakagawai sp. nov. and Chryseobacterium taklimakanense comb. nov.	Holmes B, Steigerwalt AG, Nicholson AC	Int J Syst Evol Microbiol	10.1099/ijs.0.054353-0	2013	*

References

#20215

Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )

#29115

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #25541 (see below)

#63519 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 68730

#66792

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#66794

Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )

#69479

João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#91457

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID409265.1 )

#25541

IJSEM 1672 2009 ( DOI 10.1099/ijs.0.006619-0 , PubMed 19542118 )

* These data were automatically processed and therefore are not curated

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Chryseobacterium taklimakanense NCTC13490

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